Fumerase - PFAM28P - GREMLIN Contacts

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Fumerase - Fumarate hydratase (Fumerase)

PFAM:	PF05681	Sequences: TEAVAELCIDASYYLPPDVLAALAKALEDEASPNAKDVLAQILENAEIAAEGKLPICQDTGTAVVFVKIGQDVHITGGDLEEAINEGVRRAYTEGYLRKSVVADPLTRKNTGDNTPAVIHIEIVPGDKLKITVAPKGGGSENKSALYMLNPSDGLEGVKDFVLETVKTAGGNACPPGILGVGIGGTSEKAALLAKKALLRPLGTRNPDPELAELEEELLEKINALGIGPQGLGGKTTALDVKIERLPTHIASLPVAVNVSCHADRHAEA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	269 (268)
Sequences:	14182 (6657)
Seq/√Len:	406.6
META:	0.877

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
159_K	217_E	3.132	1.00
5_A	94_E	2.991	1.00
68_K	130_K	2.976	1.00
27_L	40_A	2.867	1.00
5_A	90_R	2.744	1.00
164_E	168_T	2.503	1.00
31_A	235_K	2.422	1.00
122_E	196_K	2.345	1.00
159_K	221_K	2.328	1.00
20_L	50_A	2.277	1.00
90_R	94_E	2.266	1.00
89_R	113_D	2.238	1.00
68_K	122_E	2.207	1.00
62_T	101_V	2.182	1.00
81_E	122_E	2.153	1.00
47_E	51_E	2.123	1.00
145_A	168_T	2.109	1.00
132_T	268_E	1.975	1.00
260_S	264_D	1.970	1.00
79_D	82_E	1.968	1.00
85_N	117_A	1.964	1.00
25_K	29_D	1.964	1.00
86_E	89_R	1.957	1.00
10_D	14_Y	1.936	1.00
130_K	268_E	1.929	1.00
150_N	153_D	1.905	1.00
81_E	85_N	1.889	1.00
14_Y	50_A	1.856	1.00
44_E	47_E	1.837	1.00
187_S	191_A	1.827	1.00
220_E	224_A	1.810	1.00
56_I	263_A	1.799	1.00
107_T	210_E	1.782	1.00
67_V	131_I	1.774	1.00
147_Y	161_F	1.754	1.00
138_G	252_S	1.754	1.00
75_I	129_L	1.749	1.00
145_A	165_T	1.713	1.00
205_R	216_E	1.703	1.00
3_A	269_A	1.695	1.00
200_R	244_E	1.651	1.00
189_K	246_L	1.649	1.00
146_L	187_S	1.645	1.00
160_D	164_E	1.644	1.00
222_I	238_A	1.640	1.00
65_V	133_V	1.639	1.00
81_E	121_I	1.620	1.00
173_A	177_G	1.616	1.00
219_L	238_A	1.599	1.00
21_A	25_K	1.595	1.00
17_P	21_A	1.595	1.00
40_A	44_E	1.574	1.00
205_R	240_D	1.569	1.00
6_E	10_D	1.566	1.00
86_E	90_R	1.565	1.00
177_G	238_A	1.560	1.00
167_K	225_L	1.559	1.00
32_S	35_A	1.505	1.00
206_N	211_L	1.497	1.00
156_E	160_D	1.485	1.00
143_K	172_N	1.483	1.00
211_L	245_R	1.470	1.00
103_A	111_T	1.462	1.00
8_C	91_A	1.453	1.00
101_V	111_T	1.449	1.00
20_L	24_A	1.439	1.00
67_V	80_L	1.434	1.00
5_A	9_I	1.428	1.00
11_A	267_A	1.420	1.00
14_Y	53_K	1.419	1.00
35_A	229_P	1.413	1.00
155_L	159_K	1.409	1.00
88_V	117_A	1.400	1.00
8_C	133_V	1.393	1.00
13_Y	53_K	1.390	1.00
65_V	84_I	1.351	1.00
155_L	217_E	1.350	1.00
194_A	258_N	1.341	1.00
201_P	204_T	1.338	1.00
22_A	25_K	1.322	1.00
212_A	216_E	1.321	1.00
24_A	43_L	1.320	1.00
196_K	244_E	1.313	1.00
162_V	218_L	1.303	1.00
179_L	222_I	1.301	1.00
9_I	95_G	1.297	1.00
204_T	242_K	1.290	1.00
103_A	109_K	1.284	1.00
62_T	138_G	1.280	1.00
65_V	88_V	1.263	1.00
9_I	13_Y	1.261	1.00
162_V	181_V	1.260	1.00
10_D	267_A	1.256	1.00
79_D	125_P	1.250	1.00
154_G	157_G	1.250	1.00
163_L	221_K	1.250	1.00
185_G	189_K	1.244	1.00
67_V	84_I	1.241	1.00
93_T	99_K	1.241	1.00
181_V	257_V	1.235	1.00
155_L	214_L	1.232	1.00
73_V	129_L	1.221	1.00
120_H	192_L	1.216	1.00
160_D	221_K	1.215	1.00
20_L	47_E	1.208	1.00
8_C	63_A	1.201	1.00
138_G	248_T	1.188	1.00
67_V	121_I	1.163	1.00
104_D	245_R	1.157	1.00
11_A	135_P	1.153	1.00
109_K	112_G	1.148	1.00
142_N	252_S	1.147	1.00
103_A	107_T	1.147	1.00
3_A	6_E	1.143	1.00
177_G	259_V	1.137	1.00
203_G	240_D	1.128	1.00
203_G	242_K	1.128	1.00
148_M	255_V	1.114	1.00
179_L	259_V	1.109	1.00
24_A	28_E	1.108	1.00
220_E	223_N	1.106	1.00
48_I	52_G	1.105	1.00
27_L	36_K	1.105	1.00
210_E	213_E	1.104	1.00
165_T	168_T	1.101	1.00
166_V	222_I	1.098	1.00
2_E	90_R	1.095	1.00
221_K	224_A	1.094	1.00
38_V	232_L	1.088	1.00
71_Q	125_P	1.082	1.00
24_A	47_E	1.079	1.00
211_L	243_I	1.077	1.00
68_K	196_K	1.071	1.00
20_L	43_L	1.064	1.00
20_L	46_A	1.063	1.00
149_L	157_G	1.053	1.00
81_E	119_I	1.052	1.00
146_L	191_A	1.049	1.00
84_I	119_I	1.049	1.00
217_E	221_K	1.046	1.00
4_V	84_I	1.044	1.00
214_L	243_I	1.044	1.00
157_G	160_D	1.040	1.00
208_D	245_R	1.038	1.00
144_S	187_S	1.035	1.00
63_A	133_V	1.034	1.00
248_T	252_S	1.029	1.00
216_E	220_E	1.028	1.00
21_A	24_A	1.025	1.00
22_A	26_A	1.024	1.00
22_A	202_L	1.018	1.00
204_T	207_P	1.015	1.00
7_L	267_A	1.014	1.00
43_L	46_A	1.005	1.00
2_E	6_E	1.003	1.00
69_I	121_I	1.003	1.00
192_L	196_K	1.000	1.00
107_T	208_D	0.996	1.00
92_Y	99_K	0.991	1.00
188_E	192_L	0.989	1.00
197_A	244_E	0.984	1.00
104_D	107_T	0.982	1.00
221_K	225_L	0.980	1.00
104_D	210_E	0.980	1.00
213_E	217_E	0.971	1.00
147_Y	164_E	0.969	1.00
163_L	218_L	0.965	1.00
29_D	235_K	0.961	1.00
37_D	40_A	0.949	1.00
191_A	256_A	0.944	1.00
187_S	256_A	0.941	1.00
29_D	236_T	0.940	1.00
15_L	46_A	0.933	1.00
161_F	165_T	0.927	1.00
27_L	43_L	0.921	1.00
71_Q	123_I	0.918	1.00
189_K	192_L	0.912	1.00
104_D	211_L	0.908	1.00
132_T	199_L	0.905	1.00
69_I	129_L	0.899	1.00
25_K	28_E	0.897	1.00
12_S	135_P	0.894	1.00
45_N	49_A	0.885	1.00
165_T	169_A	0.884	1.00
186_T	190_A	0.881	1.00
163_L	167_K	0.878	1.00
89_R	93_T	0.874	1.00
219_L	241_V	0.872	1.00
145_A	161_F	0.870	1.00
218_L	222_I	0.866	1.00
164_E	167_K	0.865	1.00
182_G	193_L	0.864	1.00
23_L	39_L	0.861	1.00
149_L	153_D	0.860	1.00
6_E	9_I	0.856	1.00
83_A	87_G	0.856	1.00
193_L	244_E	0.856	1.00
161_F	255_V	0.855	1.00
202_L	240_D	0.852	1.00
159_K	163_L	0.849	1.00
85_N	119_I	0.843	1.00
193_L	246_L	0.842	1.00
82_E	85_N	0.840	1.00
37_D	41_Q	0.837	1.00
108_R	248_T	0.833	1.00
178_I	202_L	0.825	1.00
229_P	236_T	0.822	1.00
69_I	123_I	0.804	1.00
66_F	192_L	0.798	1.00
8_C	12_S	0.796	1.00
120_H	188_E	0.790	1.00
189_K	196_K	0.789	1.00
7_L	269_A	0.788	1.00
153_D	160_D	0.788	1.00
166_V	179_L	0.787	1.00
204_T	212_A	0.786	1.00
35_A	236_T	0.784	1.00
209_P	213_E	0.783	1.00
150_N	157_G	0.783	1.00
19_V	264_D	0.782	1.00
91_A	95_G	0.781	1.00
144_S	191_A	0.781	1.00
76_T	79_D	0.781	1.00
156_E	159_K	0.779	1.00
183_I	243_I	0.776	1.00
206_N	212_A	0.775	1.00
158_V	183_I	0.774	1.00
15_L	56_I	0.774	1.00
26_A	39_L	0.769	1.00
143_K	173_A	0.767	1.00
5_A	91_A	0.767	1.00
155_L	213_E	0.767	1.00
159_K	214_L	0.765	1.00
213_E	216_E	0.758	1.00
180_G	197_A	0.755	1.00
87_G	91_A	0.755	1.00
171_G	230_Q	0.755	1.00
66_F	199_L	0.751	1.00
195_K	258_N	0.750	1.00
205_R	212_A	0.749	1.00
101_V	247_P	0.749	1.00
200_R	203_G	0.748	1.00
76_T	80_L	0.744	1.00
143_K	169_A	0.743	1.00
163_L	225_L	0.737	1.00
9_I	53_K	0.735	1.00
205_R	242_K	0.735	1.00
9_I	91_A	0.734	1.00
159_K	218_L	0.733	1.00
62_T	118_V	0.733	1.00
190_A	256_A	0.726	1.00
8_C	87_G	0.726	1.00
68_K	124_V	0.725	1.00
153_D	157_G	0.724	1.00
12_S	97_L	0.724	1.00
23_L	42_I	0.723	1.00
68_K	132_T	0.722	1.00
44_E	48_I	0.721	1.00
203_G	206_N	0.719	1.00
72_D	127_D	0.718	1.00
24_A	27_L	0.709	1.00
7_L	133_V	0.708	1.00
155_L	210_E	0.707	1.00
206_N	209_P	0.705	1.00
207_P	210_E	0.705	1.00
187_S	190_A	0.703	1.00
34_N	38_V	0.703	1.00
8_C	65_V	0.703	1.00
211_L	214_L	0.701	1.00
166_V	259_V	0.697	1.00
193_L	196_K	0.696	1.00
13_Y	54_L	0.683	1.00
106_L	183_I	0.683	1.00
26_A	236_T	0.683	1.00
16_P	19_V	0.681	1.00
18_D	202_L	0.680	1.00
80_L	121_I	0.677	0.99
208_D	211_L	0.677	0.99
36_K	40_A	0.676	0.99
107_T	211_L	0.675	0.99
146_L	256_A	0.675	0.99
169_A	173_A	0.674	0.99
3_A	7_L	0.674	0.99
14_Y	20_L	0.668	0.99
200_R	206_N	0.667	0.99
200_R	204_T	0.667	0.99
178_I	264_D	0.655	0.99
145_A	164_E	0.655	0.99
63_A	92_Y	0.655	0.99
144_S	258_N	0.654	0.99
72_D	126_G	0.653	0.99
64_V	258_N	0.651	0.99
160_D	163_L	0.649	0.99
227_I	237_T	0.649	0.99
248_T	253_L	0.649	0.99
222_I	225_L	0.647	0.99
102_V	107_T	0.644	0.99
118_V	186_T	0.642	0.99
78_G	83_A	0.642	0.99
161_F	257_V	0.641	0.99
71_Q	74_H	0.638	0.99
32_S	235_K	0.638	0.99
179_L	238_A	0.636	0.99
222_I	241_V	0.634	0.99
23_L	46_A	0.633	0.99
138_G	251_A	0.631	0.99
71_Q	79_D	0.631	0.99
15_L	19_V	0.629	0.99
18_D	22_A	0.625	0.99
21_A	203_G	0.623	0.99
195_K	256_A	0.623	0.99
202_L	242_K	0.622	0.99
71_Q	77_G	0.620	0.99
84_I	87_G	0.618	0.99
17_P	20_L	0.618	0.99
82_E	86_E	0.616	0.99
165_T	257_V	0.616	0.99
78_G	125_P	0.613	0.99
183_I	255_V	0.613	0.99
106_L	155_L	0.610	0.99
19_V	23_L	0.606	0.99
134_A	266_H	0.605	0.99
48_I	54_L	0.604	0.99
110_N	113_D	0.601	0.99
82_E	89_R	0.601	0.99
106_L	211_L	0.601	0.99
69_I	77_G	0.597	0.99
14_Y	17_P	0.594	0.99
46_A	56_I	0.593	0.99
62_T	186_T	0.592	0.99
181_V	243_I	0.590	0.99
147_Y	168_T	0.589	0.99
104_D	208_D	0.589	0.99
147_Y	165_T	0.585	0.99
38_V	229_P	0.584	0.99
74_H	123_I	0.584	0.99
66_F	122_E	0.581	0.98
41_Q	44_E	0.580	0.98
26_A	239_L	0.580	0.98
42_I	46_A	0.577	0.98
186_T	189_K	0.577	0.98
118_V	246_L	0.576	0.98
69_I	75_I	0.575	0.98
13_Y	97_L	0.575	0.98
146_L	190_A	0.574	0.98
82_E	125_P	0.572	0.98
151_P	154_G	0.571	0.98
30_E	35_A	0.571	0.98
8_C	88_V	0.571	0.98
23_L	27_L	0.571	0.98
102_V	250_I	0.567	0.98
230_Q	260_S	0.565	0.98
38_V	41_Q	0.564	0.98
214_L	217_E	0.564	0.98
163_L	224_A	0.562	0.98
67_V	119_I	0.562	0.98
49_A	56_I	0.562	0.98
158_V	253_L	0.557	0.98
132_T	135_P	0.556	0.98
143_K	177_G	0.555	0.98
18_D	201_P	0.554	0.98
201_P	242_K	0.553	0.98
200_R	242_K	0.552	0.98
149_L	154_G	0.552	0.98
30_E	236_T	0.552	0.98
75_I	80_L	0.551	0.98
90_R	93_T	0.547	0.98
34_N	37_D	0.547	0.98
4_V	131_I	0.543	0.98
145_A	169_A	0.542	0.98
71_Q	126_G	0.540	0.98
8_C	135_P	0.537	0.97
23_L	43_L	0.537	0.97
147_Y	153_D	0.535	0.97
64_V	188_E	0.535	0.97
218_L	241_V	0.531	0.97
67_V	75_I	0.530	0.97
158_V	162_V	0.529	0.97
106_L	158_V	0.529	0.97
229_P	234_G	0.528	0.97
16_P	266_H	0.527	0.97
170_G	175_P	0.526	0.97
200_R	215_E	0.525	0.97
111_T	247_P	0.522	0.97
80_L	129_L	0.522	0.97
236_T	239_L	0.521	0.97
62_T	252_S	0.520	0.97
101_V	115_T	0.519	0.97
162_V	222_I	0.511	0.97
155_L	218_L	0.511	0.97
18_D	266_H	0.510	0.97
260_S	263_A	0.509	0.96
214_L	221_K	0.506	0.96
7_L	11_A	0.505	0.96
226_G	233_G	0.503	0.96
101_V	118_V	0.503	0.96
64_V	118_V	0.502	0.96
2_E	5_A	0.502	0.96
38_V	230_Q	0.502	0.96
140_S	264_D	0.501	0.96
191_A	194_A	0.500	0.96
42_I	263_A	0.500	0.96

Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling
Upload PDB model overlay contacts on the model

HHsearch Results:

Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.

PDB	Chains	Cov	%	HHΔ
3k9dA	2	0.881	60.6	0.958	Contact Map
4knaA	2	0.9182	47.1	0.962	Contact Map
3kzqA	3	0.3197	41.8	0.963	Contact Map
4gxzA	1	0.3197	37.2	0.964	Contact Map
3rppA	2	0.3494	35.8	0.964	Contact Map
3ty7A	2	0.9182	34.6	0.964	Contact Map
4z7xA	1	0.3011	34	0.965	Contact Map
1r4wA	2	0.3532	33.7	0.965	Contact Map
3ne8A	2	0.368	28.3	0.966	Contact Map
3h6eA	1	0.3048	27.3	0.966	Contact Map

Sequence Conservation (Image Generated using WebLogo v3)

Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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